5V1E image
Entry Detail
PDB ID:
5V1E
Title:
Suboptimization of a glycine rich peptide allows the combinatorial space exploration for designing novel antimicrobial peptides
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2017-03-02
Release Date:
2018-03-07
Method Details:
Experimental Method:
Conformers Submitted:
10
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Guavanin 2
Chain IDs:A
Chain Length:21
Number of Molecules:1
Biological Source:synthetic construct
Ligand Molecules
Primary Citation
In silico optimization of a guava antimicrobial peptide enables combinatorial exploration for peptide design.
Nat Commun 9 1490 1490 (2018)
PMID: 29662055 DOI: 10.1038/s41467-018-03746-3

Abstact

Plants are extensively used in traditional medicine, and several plant antimicrobial peptides have been described as potential alternatives to conventional antibiotics. However, after more than four decades of research no plant antimicrobial peptide is currently used for treating bacterial infections, due to their length, post-translational modifications or  high dose requirement for a therapeutic effect . Here we report the design of antimicrobial peptides derived from a guava glycine-rich peptide using a genetic algorithm. This approach yields guavanin peptides, arginine-rich α-helical peptides that possess an unusual hydrophobic counterpart mainly composed of tyrosine residues. Guavanin 2 is characterized as a prototype peptide in terms of structure and activity. Nuclear magnetic resonance analysis indicates that the peptide adopts an α-helical structure in hydrophobic environments. Guavanin 2 is bactericidal at low concentrations, causing membrane disruption and triggering hyperpolarization. This computational approach for the exploration of natural products could be used to design effective peptide antibiotics.

Legend

Protein

Chemical

Disease

Primary Citation of related structures